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Recode-2: new design, new search tools, and many more genes.

Bekaert, Michaël
; 
Firth, Andrew E
; 
Zhang, Yan
; 
Gladyshev, Vadim N
; 
Atkins, John F
; 
Baranov, Pavel V
Authors
Bekaert, Michaël
 Firth, Andrew E
 Zhang, Yan
 Gladyshev, Vadim N
 Atkins, John F
 Baranov, Pavel V
Advisors
Editors
Other Contributors
Departments
School of Biology and Environmental Science, University College Dublin, BioSciences Institute, University College Cork, Ireland.
Date
2010-01
Date Submitted
Keywords
Other Subjects
Subject Mesh
Algorithms
Animals
Base Sequence
Codon, Terminator
Computational Biology
Databases, Genetic
Databases, Protein
Frameshifting, Ribosomal
Humans
Information Storage and Retrieval
Internet
Molecular Sequence Data
Protein Biosynthesis
Software
Planned Date
Start Date
Collaborators
Principal Investigators
Files
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19783826.pdf
Adobe PDF, 1.41 MB
Alternative Titles
Publisher
URI
https://hdl.handle.net/10147/94018
Abstract
'Recoding' is a term used to describe non-standard read-out of the genetic code, and encompasses such phenomena as programmed ribosomal frameshifting, stop codon readthrough, selenocysteine insertion and translational bypassing. Although only a small proportion of genes utilize recoding in protein synthesis, accurate annotation of 'recoded' genes lags far behind annotation of 'standard' genes. In order to address this issue, provide a service to researchers in the field, and offer training data for developers of gene-annotation software, we have gathered together known cases of recoding within the Recode database. Recode-2 is an improved and updated version of the database. It provides access to detailed information on genes known to utilize translational recoding and allows complex search queries, browsing of recoding data and enhanced visualization of annotated sequence elements. At present, the Recode-2 database stores information on approximately 1500 genes that are known to utilize recoding in their expression--a factor of approximately three increase over the previous version of the database. Recode-2 is available at http://recode.ucc.ie.
Language
en
Citation
Recode-2: new design, new search tools, and many more genes. 2010, 38 (Database issue):D69-74 Nucleic Acids Res.
ISSN
1362-4962
eISSN
ISBN
DOI
10.1093/nar/gkp788
PMID
19783826
PMCID
Sponsorships
Funding Sources
Funding Amounts
Grant Identifiers
Methodology
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Ethical Approval